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Microarray Studies (Beyond Histology)

  • Cyrus V. Hedvat
Chapter
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Abstract

In 1999, the National Cancer Institute (NCI) began a funding initiative called the Director’s Challenge: Toward a Molecular Classification of Tumors, with the goal of defining comprehensive profiles of molecular alterations in tumors that could be used to identify subsets of patients. These molecular profiles would provide the basis for future studies to validate the clinical utility of molecular-based classification schemes. A further goal of this initiative was the development and implementation of a plan for the timely release of the extensive data sets expected to result from these projects. At that time, it was becoming apparent that the knowledge of the entire human genome combined with rapidly improving technology for comprehensive analysis of the 20,000 to 25,000 genes and encoded proteins would provide an opportunity for a deeper understanding of the molecular basis of disease processes that would guide the evolution of improved therapies based on new diagnostic schemes. Specific molecular profiles correlate with important clinical parameters, which should allow physicians to base management decisions on the molecular characteristics of an individual patient’s tumor, and improve a physician’s ability to determine the primary tumor site for tumors of unknown origin at the time of their detection.

Keywords

Metastatic Prostate Cancer Oligonucleotide Array cDNA Array Polycomb Group Protein Central Nervous System Embryonal Tumour 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

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References

  1. 1.
    Maughan NJ, Lewis FA, Smith V. An introduction to arrays. J Pathol. 2001;195:3–6.PubMedCrossRefGoogle Scholar
  2. 2.
    Holloway AJ, van Laar RK, Tothill RW, Bowtell DD. Options available—from start to finish—for obtaining data from DNA microarrays II. Nat Genet. 2002;32(suppl):481–489.PubMedCrossRefGoogle Scholar
  3. 3.
    Churchill GA. Fundamentals of experimental design for cDNA microarrays. Nat Genet. 2002;32(suppl):490–495.PubMedCrossRefGoogle Scholar
  4. 4.
    MacBeath G. Protein microarrays and proteomics. Nat Genet. 2002;(suppl):526–532.CrossRefGoogle Scholar
  5. 5.
    Kononen J, Bubendorf L, Kallioniemi A, et al. Tissue microarrays for high-throughput molecular profiling of tumor specimens. Nat Med. 1998;4:844–847.PubMedCrossRefGoogle Scholar
  6. 6.
    Hoos A, Cordon-Cardo C. Tissue microarray profiling of cancer specimens and cell lines: opportunities and limitations. Lab Invest. 2001;81:1331–1338.PubMedGoogle Scholar
  7. 7.
    Fejzo MS, Slamon DJ. Frozen tumor tissue microarray technology for analysis of tumor RNA, DNA, and proteins. Am J Pathol. 2001;159:1645–1650.Google Scholar
  8. 8.
    Hoos A, Urist MJ, Stojadinovic A, et al. Validation of tissue microarrays for immunohistochemical profiling of cancer specimens using the example of human fibroblastic tumors. Am J Pathol. 2001;158:1245–1251.PubMedGoogle Scholar
  9. 9.
    Hedvat CV, Hegde A, Chaganti RS, et al. Application of tissue microarray technology to the study of non-Hodgkin’s and Hodgkin’s lymphoma. Hum Pathol. 2002;33:968–974.PubMedCrossRefGoogle Scholar
  10. 10.
    Rubin MA, Dunn R, Strawderman M, Pienta KJ. Tissue microarray sampling strategy for prostate cancer biomarker analysis. Am J Surg Pathol. 2002;26:312–319.PubMedCrossRefGoogle Scholar
  11. 11.
    Brazma A, Vilo J. Gene expression data analysis. Microbes Infect. 2001;3:823–829.PubMedCrossRefGoogle Scholar
  12. 12.
    Quackenbush J. Computational analysis of microarray data. Nat Rev Genet. 2001;2:418–427.PubMedCrossRefGoogle Scholar
  13. 13.
    Eisen MB, Spellman PT, Brown PO, Botstein D. Cluster analysis and display of genome-wide expression patterns. Proc Natl Acad Sci U S A. 1998;95:14863–14868.PubMedCrossRefGoogle Scholar
  14. 14.
    Bhattacharjee A, Richards WG, Staunton J, et al. Classification of human lung carcinomas by mRNA expression profiling reveals distinct adenocarcinoma subclasses. Proc Natl Acad Sci U S A. 2001;98:13790–13795.PubMedCrossRefGoogle Scholar
  15. 15.
    Garber ME, Troyanskaya OG, Schluens K, et al. Diversity of gene expression in adenocarcinoma of the lung. Proc Natl Acad Sci U S A. 2001;98:13784–13789.PubMedCrossRefGoogle Scholar
  16. 16.
    Singh D, Febbo PG, Ross K, et al. Gene expression correlates of clinical prostate cancer behavior. Cancer Cell. 2002;1:203–209.PubMedCrossRefGoogle Scholar
  17. 17.
    Perou CM, Sorlie T, Eisen MB, et al. Molecular portraits of human breast tumours. Nature. 2000;406:747–752.PubMedCrossRefGoogle Scholar
  18. 18.
    Sorlie T, Perou CM, Tibshirani R, et al. Gene expression patterns of breast carcinomas distinguish tumor subclasses with clinical implications. Proc Natl Acad Sci U S A. 2001;98:10869–10874.PubMedCrossRefGoogle Scholar
  19. 19.
    van de Vijver MJ, He YD, van’t Veer LJ, et al. A gene-expression signature as a predictor of survival in breast cancer. N Engl J Med. 2002;347:1999–2009.PubMedCrossRefGoogle Scholar
  20. 20.
    Pomeroy SL, Tamayo P, Gaasenbeek M, et al. Prediction of central nervous system embryonal tumour outcome based on gene expression. Nature. 2002;415:436–442.PubMedCrossRefGoogle Scholar
  21. 21.
    Bittner M, Meltzer P, Chen Y, et al. Molecular classification of cutaneous malignant melanoma by gene expression profiling. Nature. 2000;406:536–540.PubMedCrossRefGoogle Scholar
  22. 22.
    Dhanasekaran SM, Barrette TR, Ghosh D, et al. Delineation of prognostic biomarkers in prostate cancer. Nature. 2001;412:822–826.PubMedCrossRefGoogle Scholar
  23. 23.
    Varambally S, Dhanasekaran SM, Zhou M, et al. The polycomb group protein EZH2 is involved in progression of prostate cancer. Nature. 2002;419:624–629.PubMedCrossRefGoogle Scholar
  24. 24.
    Ramaswamy S, Ross KN, Lander ES, Golub TR. A molecular signature of metastasis in primary solid tumors. Nat Genet. 2003;33: 49–54.PubMedCrossRefGoogle Scholar

Copyright information

© Springer Science+Business Media, LLC 2007

Authors and Affiliations

  • Cyrus V. Hedvat
    • 1
  1. 1.Department of PathologyMemorial Sloan Kettering Cancer CenterNew YorkUSA

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